Table 4 Candidate genes for LMA in the single-breed GWASs and meta-analysis.

From: A meta-analysis of genome-wide association studies revealed significant QTL and candidate genes for loin muscle area in three breeding pigs

SSC1

Candidate genes

Position (Mb)2

N3

Consequence

8

SGMS2

114.12

1

intron_variant

14

ADAM12

135.34–135.37

2

intron_variant

16

ARL15

33.11–33.55

155

downstream_gene_variant

intron_variant

3_prime_UTR_variant

 

CDC20B

34.32–34-34

2

intron_variant

 

DAB2

24.68

1

intron_variant

 

DHX29

34.42–34.47

15

downstream_gene_variant

intron_variant

 

EBF1

64.69–64.69

2

intron_variant

 

FST

32.81–32.82

4

intron_variant

downstream_gene_variant

 

GPX8

34.34

1

downstream_gene_variant

 

HSPB3

33.72

1

upstream_gene_variant

 

MTREX

34.60–34.61

2

intron_variant

downstream_gene_variant

 

NDUFS4

32.87–32.99

86

3_prime_UTR_variant

downstream_gene_variant

intron_variant

upstream_gene_variant

 

PLPP1

34.61–34.73

4

intron_variant

 

SKIV2L2

34.60–34.61

2

intron_variant

downstream_gene_variant

 

SLC38A9

34.67–34.75

4

intron_variant

non_coding_transcript_variant

 

SNX18

33.83–33.84

2

intron_variant

18

GALNTL5

5.39–5.46

106

intron_variant

5_prime_UTR_variant

missense_variant

splice_region_variant

splice_polypyrimidine_tract_variant

synonymous_variant

synonymous_variant

  1. 1SSC: Sus scrofa chromosome.
  2. 2Position: Range of significant SNP in Ensembl.
  3. 3N: Number of significant SNP.